* [babel] Give a name to the plot @ 2009-12-03 22:58 Sébastien Vauban 2009-12-03 23:58 ` Dan Davison 0 siblings, 1 reply; 5+ messages in thread From: Sébastien Vauban @ 2009-12-03 22:58 UTC (permalink / raw) To: emacs-orgmode-mXXj517/zsQ Hi Eric and Dan, Just a quick question (before testing and answering properly, tomorrow, to your post): how do you give a name to an R plot? Just taking your example file: --8<---------------cut here---------------start------------->8--- #+srcname: directory-pie-chart(dirs = directories) #+begin_src R :session R-pie-example pie(dirs[,1], labels = dirs[,2]) #+end_src [[file:../../images/babel/dirs.png]] --8<---------------cut here---------------end--------------->8--- I don't see how the `dirs.png' name is derivated from the above block? I've tried arguments such as `:file' or `filename:', but did not get any success... Currently, all my R blocks produce an `Rplots.pdf' graph file... Don't see where that is coming from... Pay attention: I'm an R user for the last 3 days or so... Not very aware of where the name can be set... Best regards, Seb -- Sébastien Vauban _______________________________________________ Emacs-orgmode mailing list Please use `Reply All' to send replies to the list. Emacs-orgmode-mXXj517/zsQ@public.gmane.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode ^ permalink raw reply [flat|nested] 5+ messages in thread
* Re: [babel] Give a name to the plot 2009-12-03 22:58 [babel] Give a name to the plot Sébastien Vauban @ 2009-12-03 23:58 ` Dan Davison 2009-12-04 9:18 ` Sébastien Vauban 0 siblings, 1 reply; 5+ messages in thread From: Dan Davison @ 2009-12-03 23:58 UTC (permalink / raw) To: Sébastien Vauban; +Cc: emacs-orgmode Sébastien Vauban <wxhgmqzgwmuf@spammotel.com> writes: > Hi Eric and Dan, > > Just a quick question (before testing and answering properly, tomorrow, to > your post): how do you give a name to an R plot? > > Just taking your example file: > > #+srcname: directory-pie-chart(dirs = directories) > #+begin_src R :session R-pie-example > pie(dirs[,1], labels = dirs[,2]) > #+end_src > [[file:../../images/babel/dirs.png]] > > I don't see how the `dirs.png' name is derivated from the above block? Hi Seb, Sorry, more documentation shortcomings. When that was written it did not happen automatically, but it does now. > I've tried arguments such as `:file' or `filename:', but did not get any > success... e.g. :file filename.png should do it. Here's the relevant commit note. I'll move this into the documentation now. commit 8b52bf09e0644cc5b6ea85e5248403fcd562f4f3 Author: Dan Davison <davison@stats.ox.ac.uk> Date: Mon Oct 19 21:00:24 2009 -0400 org-babel: capture graphical output from R If a [:file filename.ext] header arg is provided, then all graphical output from the source block is captured on disk, and output of the source block is a link to the resulting file, as with the graphics-only languages such as gnuplot, ditaa, dot, asymptote. An attempt is made to find a graphics device corresponding to the file extension (currently .png, .jpg, .jpeg, .tiff, .bmp, .pdf, .ps, .postscript are recognised); if that fails, png format output is created. Additionally, values for several arguments to the R graphics device can be passed using header args: :width :height :bg :units :pointsize :antialias :quality :compression :res :type :family :title :fonts :version :paper :encoding :pagecentre :colormodel :useDingbats :horizontal Arguments to the R graphics device that are not supported as header args can be passed as a string in R argument syntax, using the header arg :R-dev-args An example block is (although both bg and fg can be passed directly as header args) \#+begin_src R :file z.pdf :width 8 :height 8 :R-dev-args bg="olivedrab", fg="hotpink" plot(matrix(rnorm(100), ncol=2), type="l") \#+end_src > > Currently, all my R blocks produce an `Rplots.pdf' graph file... Don't see > where that is coming from... Pay attention: I'm an R user for the last 3 days That is the default in R when you issue plot commands from a non-interactive R process. But if you use the :file header arg all graphical output will be diverted to the named file as outlined above. dan > or so... Not very aware of where the name can be set... > > Best regards, > Seb ^ permalink raw reply [flat|nested] 5+ messages in thread
* Re: [babel] Give a name to the plot 2009-12-03 23:58 ` Dan Davison @ 2009-12-04 9:18 ` Sébastien Vauban 2009-12-04 17:00 ` Eric Schulte 2009-12-04 17:04 ` Dan Davison 0 siblings, 2 replies; 5+ messages in thread From: Sébastien Vauban @ 2009-12-04 9:18 UTC (permalink / raw) To: emacs-orgmode-mXXj517/zsQ Hi Dan, Dan Davison wrote: > Sébastien Vauban <wxhgmqzgwmuf-geNee64TY+gS+FvcfC7Uqw@public.gmane.org> writes: >> >> Just a quick question (before testing and answering properly, tomorrow, to >> your post): how do you give a name to an R plot? >> >> Just taking your example file: >> >> #+srcname: directory-pie-chart(dirs = directories) >> #+begin_src R :session R-pie-example >> pie(dirs[,1], labels = dirs[,2]) >> #+end_src >> [[file:../../images/babel/dirs.png]] >> >> I don't see how the `dirs.png' name is derivated from the above block? > > Hi Seb, > > Sorry, more documentation shortcomings. When that was written it did not > happen automatically, but it does now. You don't have to be sorry. *I am* more than grateful by all you already have given to us... A documentation lack is something expected in such big projects, still on the move. That's not a problem for me. Your responsiveness on the mailing list does correct such little features. >> I've tried arguments such as `:file' or `filename:', but did not get any >> success... > > e.g. > > :file filename.png > > should do it. Here's the relevant commit note. I'll move this into the > documentation now. > > [...] > > An example block is (although both bg and fg can be passed directly as > header args) > > \#+begin_src R :file z.pdf :width 8 :height 8 :R-dev-args bg="olivedrab", fg="hotpink" > plot(matrix(rnorm(100), ncol=2), type="l") > \#+end_src It does work, yes! Though, it did not when I tested, as I surrounded the filename with double quotes: :file "filename.png" No message. No file generated. That was the observation I could make. Thanks for helping... >> Currently, all my R blocks produce an `Rplots.pdf' graph file... Don't see >> where that is coming from... Pay attention: I'm an R user for the last 3 days > > That is the default in R when you issue plot commands from a > non-interactive R process. But if you use the :file header arg all > graphical output will be diverted to the named file as outlined above. OK. A side question (now that I have more graphics appearing in my example document): is there/would there/will there be a way to regenerate all the graphics included in my document? I would be nice, as input data is changing over time. Let's take the example you took in your doc: the directory organization on your disk. Let's imagine you have 3 such graphics for 3 different disks. How could you get all of these external commands launched for getting new data and new plots? I can imagine (that's how Carsten does see the things with the tables, if I understand correctly) this never will or would be automatic upon opening of file -- and I can share the motivation for such decision. But can we imagine a command that does the update of all blocks -- so, when the user does decide it? Currently, I have to go in every block and C-c C-c them all, right? Best regards, Seb -- Sébastien Vauban _______________________________________________ Emacs-orgmode mailing list Please use `Reply All' to send replies to the list. Emacs-orgmode-mXXj517/zsQ@public.gmane.org http://lists.gnu.org/mailman/listinfo/emacs-orgmode ^ permalink raw reply [flat|nested] 5+ messages in thread
* Re: Re: [babel] Give a name to the plot 2009-12-04 9:18 ` Sébastien Vauban @ 2009-12-04 17:00 ` Eric Schulte 2009-12-04 17:04 ` Dan Davison 1 sibling, 0 replies; 5+ messages in thread From: Eric Schulte @ 2009-12-04 17:00 UTC (permalink / raw) To: Sébastien Vauban; +Cc: emacs-orgmode Sébastien Vauban <wxhgmqzgwmuf@spammotel.com> writes: > > Currently, I have to go in every block and C-c C-c them all, right? > Hi Seb, try `org-babel-execute-buffer', I haven't used it recently so it may have succumb to bitt-rot, but it is supposed to do exactly that. Best -- Eric > Best regards, > Seb ^ permalink raw reply [flat|nested] 5+ messages in thread
* Re: Re: [babel] Give a name to the plot 2009-12-04 9:18 ` Sébastien Vauban 2009-12-04 17:00 ` Eric Schulte @ 2009-12-04 17:04 ` Dan Davison 1 sibling, 0 replies; 5+ messages in thread From: Dan Davison @ 2009-12-04 17:04 UTC (permalink / raw) To: Sébastien Vauban; +Cc: emacs-orgmode <...> > A side question (now that I have more graphics appearing in my example > document): is there/would there/will there be a way to regenerate all the > graphics included in my document? Hi Seb, Currently we have org-babel-execute-buffer and org-babel-execute-subtree. By the way, if you're generating graphics, I just started playing with inline images in org buffers (e.g. org-babel results). Eric's emacs starter kit[1] contains this configuration[2] for using inline images in org. I haven't worked out how to get the images to refresh when the underlying file changes (any tips? All I've learned so far really is it's a good way to make emacs segfault.) but check it out if you haven't already. > I can imagine (that's how Carsten does see the things with the tables, if I > understand correctly) this never will or would be automatic upon opening of > file I guess you could use a hook, right? E.g. find-file-hook? Dan Footnotes: [1] http://github.com/eschulte/emacs-starter-kit [2] ** Support for viewing images This allows for the viewing of images in-line in Org-mode documents. #+begin_src emacs-lisp (require 'iimage) (setq iimage-mode-image-search-path (expand-file-name "~/")) ;; Match org file: links (add-to-list 'iimage-mode-image-regex-alist (cons (concat "\\[\\[file:\\(~?" iimage-mode-image-filename-regex "\\)\\]") 1)) (defun org-toggle-iimage-in-org () (interactive) (let ((turning-on (not iimage-mode))) (set-face-underline-p 'org-link (not turning-on)) (iimage-mode (or turning-on 0)))) #+end_src ^ permalink raw reply [flat|nested] 5+ messages in thread
end of thread, other threads:[~2009-12-04 17:04 UTC | newest] Thread overview: 5+ messages (download: mbox.gz / follow: Atom feed) -- links below jump to the message on this page -- 2009-12-03 22:58 [babel] Give a name to the plot Sébastien Vauban 2009-12-03 23:58 ` Dan Davison 2009-12-04 9:18 ` Sébastien Vauban 2009-12-04 17:00 ` Eric Schulte 2009-12-04 17:04 ` Dan Davison
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